Ab initio detection of fuzzy amino acid tandem repeats in protein sequences.

ABSTRACT:

Background

Tandem repetitions within protein amino acid sequences often correspond to regular secondary structures and form multi-repeat 3D assemblies of varied size and function. Developing internal repetitions is one of the evolutionary mechanisms that proteins employ to adapt their structure and function under evolutionary pressure. While there is keen interest in understanding such phenomena, detection of repeating structures based only on sequence analysis is considered an arduous task, since structure and function is often preserved even under considerable sequence divergence (fuzzy tandem repeats).

Results

In this paper we present PTRStalker, a new algorithm for ab-initio detection of fuzzy tandem repeats in protein amino acid sequences. In the reported results we sho

SUBMITTER: Pellegrini M 

PROVIDER: S-EPMC3402919 | biostudies-literature | 2012 Mar

REPOSITORIES: biostudies-literature